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Transcriptomic Data Meta-Analysis Sheds Light on High Light Response in Arabidopsis thaliana L.

Описание

Тип публикации: статья из журнала

Год издания: 2022

Идентификатор DOI: 10.3390/ijms23084455

Ключевые слова: arabidopsis thaliana l, gene network, high light stress, meta-analysis, systems biology, transcription factors, transcription factors binding sites, transcriptomic dataarabidopsis proteins

Аннотация: The availability and intensity of sunlight are among the major factors of growth, development and metabolism in plants. However, excessive illumination disrupts the electronic balance of photosystems and leads to the accumulation of reactive oxygen species in chloroplasts, further mediating several regulatory mechanisms at the subcПоказать полностьюellular, genetic, and molecular levels. We carried out a comprehensive bioinformatic analysis that aimed to identify genetic systems and candidate transcription factors involved in the response to high light stress in Arabidopsis thaliana L. using resources GEO NCBI, string-db, ShinyGO, STREME, and Tomtom, as well as programs metaRE, CisCross, and Cytoscape. Through the meta-analysis of five transcriptomic experiments, we selected a set of 1151 differentially expressed genes, including 453 genes that compose the gene network. Ten significantly enriched regulatory motifs for TFs families ZF-HD, HB, C2H2, NAC, BZR, and ARID were found in the promoter regions of differentially expressed genes. In addition, we predicted families of transcription factors associated with the duration of exposure (RAV, HSF), intensity of high light treatment (MYB, REM), and the direction of gene expression change (HSF, S1Fa-like). We predicted genetic components systems involved in a high light response and their expression changes, potential transcriptional regulators, and associated processes. © 2022 by the authors. Licensee MDPI, Basel, Switzerland.

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Издание

Журнал: International Journal of Molecular Sciences

Выпуск журнала: Vol. 23, Is. 8

Номера страниц: 4455

ISSN журнала: 16616596

Издатель: MDPI

Персоны

  • Bobrovskikh A.V. (Institute of Cytology and Genetics Siberian Branch, Russian Academy of Sciences, Novosibirsk, 630090, Russian Federation)
  • Zubairova U.S. (Institute of Cytology and Genetics Siberian Branch, Russian Academy of Sciences, Novosibirsk, 630090, Russian Federation, Institute of Computational Mathematics and Mathematical Geophysics Siberian Branch, Russian Academy of Sciences, Novosibirsk, 630090, Russian Federation)
  • Bondar E.I. (Institute of Fundamental Biology and Biotechnology, Siberian Federal University, Krasnoyarsk, 660036, Russian Federation)
  • Doroshkov A.V. (Institute of Cytology and Genetics Siberian Branch, Russian Academy of Sciences, Novosibirsk, 630090, Russian Federation, Institute of Fundamental Biology and Biotechnology, Siberian Federal University, Krasnoyarsk, 660036, Russian Federation)
  • Lavrekha V.V. (Institute of Cytology and Genetics Siberian Branch, Russian Academy of Sciences, Novosibirsk, 630090, Russian Federation)

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